RTopper: This package is designed to perform Gene Set Analysis across multiple genomic platforms
Version 1.22.0

the RTopper package is designed to perform and integrate gene set enrichment results across multiple genomic platforms.

AuthorLuigi Marchionni <marchion@jhu.edu>, Svitlana Tyekucheva <svitlana@jimmy.harvard.edu>
Bioconductor views Microarray
Date of publicationNone
MaintainerLuigi Marchionni <marchion@jhu.edu>
LicenseGPL (>= 3)
Version1.22.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("RTopper")

Getting started

Package overview

Popular man pages

combineGSE: Combines GSE results
convertToDr: Converts genomic data to a list suitable for computing...
dat: A test dataset for the RTopper package
fgsList: A list of Functional Gene Set (FGS) to be used to run the...
gseResultsSep: A list of separated gene set enrichment p-values to be used...
intScores: A list of genomic scores integrated across distinct data sets...
sepScores: A list of separate gene-to-phenotype association scores,...
See all...

All man pages Function index File listing

Man pages

adjustPvalGSE: Multiple testing correction
combineGSE: Combines GSE results
computeDrStat: Computes gene-to-phenotype associations scores
convertToDr: Converts genomic data to a list suitable for computing...
dat: A test dataset for the RTopper package
fgsList: A list of Functional Gene Set (FGS) to be used to run the...
gseResultsSep: A list of separated gene set enrichment p-values to be used...
intScores: A list of genomic scores integrated across distinct data sets...
pheno: A test dataset for the RTopper package
RTopper-package: A package to perform run Gene Set Enrichment across genomic...
runBatchGSE: To perform GSE analysis over multipple experiments and...
sepScores: A list of separate gene-to-phenotype association scores,...

Functions

RTopper Man page
RTopper-package Man page
adjustPvalGSE Man page Source code
combineGSE Man page Source code
computeDrStat Man page Source code
computeScore Source code
convertToDr Man page Source code
dat Man page
fgsList Man page
gseResultsSep Man page
intScores Man page
myMean Source code
pAdjust Source code
pheno Man page
runBatchGSE Man page Source code
runGSE Source code
runGSEforFGSlist Source code
runGSEforFGSlistBatch Source code
sepScores Man page

Files

DESCRIPTION
LICENSE
NAMESPACE
R
R/functions.R
build
build/vignette.rds
data
data/datalist
data/exampleData.rda
data/fgsList.rda
data/gseResultsSep.rda
data/intScores.rda
data/sepScores.rda
inst
inst/CITATION
inst/doc
inst/doc/RTopper.R
inst/doc/RTopper.Rnw
inst/doc/RTopper.pdf
man
man/RTopper-package.Rd
man/adjustPvalGSE.Rd
man/combineGSE.Rd
man/computeDrStat.Rd
man/convertToDr.Rd
man/dat.Rd
man/fgsList.Rd
man/gseResultsSep.Rd
man/intScores.Rd
man/pheno.Rd
man/runBatchGSE.Rd
man/sepScores.Rd
vignettes
vignettes/RTopper.Rnw
vignettes/RTopper.bib
vignettes/preamble.tex
vignettes/subfigure.sty
vignettes/vmargin.sty
RTopper documentation built on May 20, 2017, 9:54 p.m.

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